Clinical pathogen ID
3 workflows · 2014–2022
Clinical pathogen ID: Identifying the organism behind an infection directly from the sample. 3 catalogued workflows and 3 papers.
Identifying the organism behind an infection directly from the sample.
| Workflows | 3 |
| Papers | 3 |
| Authors | 19 |
| Active | 2014-02-11 to 2022-08-25 |
Workflows (3)
- Influenza nucleocapsid substitution mapping (2014): Reads amino acid substitutions in the influenza A nucleocapsid protein by mass spectrometry with de novo sequencing, substitutions being the route by which non-synonymous mutations become antigenic shift and changed virulence.
- Influenza neuraminidase substitutions by de novo sequencing (2016): Detected three single amino acid substitutions in neuraminidase of influenza A/PR/8/34 H1N1 by LC-MS/MS with manual de novo sequencing of mutated peptides.
- Direct UTI pathogen ID (MALDI-TOF) (2022): Culture-independent MALDI-TOF/TOF de novo peptide sequencing workflow (using Protein Acrobat + NCBInr alignment) that identifies uropathogens directly from native patient urine in under 24 h, side-stepping the standard 24–72 h culture step in clinical microbiology.
Papers (3)
- Mass Spectrometry Analysis Coupled with de novo Sequencing Reveals Amino Acid Substitutions in Nucleocapsid Protein from Influenza A Virus (2014, International Journal of Molecular Sciences, peer-reviewed)
- Identification of single amino acid substitutions (SAAS) in neuraminidase from influenza a virus (H1N1) via mass spectrometry analysis coupled with de novo peptide sequencing (2016, Rapid Communications in Mass Spectrometry, peer-reviewed)
- Direct Identification of Urinary Tract Pathogens by MALDI-TOF/TOF Analysis and De Novo Peptide Sequencing (2022, Molecules, peer-reviewed)
Sequencing tools these papers used
Where the work happened
China, Croatia, Denmark